Rroxscaffold_2G00088680

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000334
Physical Location & Seq
Reverse (-)
10590349 .. 10594683
4335 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00088680.1

Sequence Viewer

Length: 375 bp
ATGGGAAAAAGAGTAACATTTGCTGTACTGTCTCCTAACATCGACATGCAGGTAGGGGAGGGAATGATGAATAAGCATGCCTTATACAAGGCAATGCAAAGCAAGACAAGCAGCAGTGGTGAAAGACAAAAGGGACAAACAGCAAAAGTCGGGTTTGGAAATGACAATAGAGCCGTAGTTTGCAATTCCGTTTATGGTGCAGAAGCCGGTGATACTTGCGGTAGCGTTGTCAAAAAGTTCAAATTGACTCTCCAATCCTTCCTTAACATCAATCCTAATATCAACTGCAACAGCTTCTTTGTGGGTCAATGGCTTTGTACCGATCGATGGGACTGCAAAGTGATGATCAAGTTGCAAGTTGCAACACTTTCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
LysM

Protein Analysis

124

Amino Acids

13.59

Weight (kDa)

9.37

Isoelectric Point (pI)

37.07

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000334)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G28240
fragaria_vesca FvH4_3g03881 FvH4_3g03882 FvH4_3g39481 FvH4_3g39491 FvH4_4g25661 FvH4_5g02870 FvH4_5g34303 FvH4_5g34304 FvH4_6g24132 FvH4_6g44490 FvH4_6g44501 FvH4_6g44545 FvH4_6g44841
malus_domestica MD09G1090300.v1.1 MD09G1096600.v1.1 MD17G1084800.v1.1 MD17G1084900.v1.1
prunus_persica Prupe.1G064500_v2.0.a1 Prupe.3G230300_v2.0.a1 Prupe.3G230400_v2.0.a1 Prupe.3G230500_v2.0.a1 Prupe.3G230600_v2.0.a1 Prupe.3G230700_v2.0.a1 Prupe.3G230900_v2.0.a1 Prupe.4G037900_v2.0.a1
pyrus_communis pycom09g02100 pycom17g08220
rosa_chinensis RchiOBHm_Chr2g0161551 RchiOBHm_Chr2g0161661 RchiOBHm_Chr2g0161721 RchiOBHm_Chr2g0161751 RchiOBHm_Chr5g0006151 RchiOBHm_Chr5g0006161 RchiOBHm_Chr5g0071201 RchiOBHm_Chr7g0234891
rosa_laevigata RLG00000003965 RLG00000021291 RLG00000021295 RLG00000023183 RLG00000031379 RLG00000032398 RLG00000036195
rosa_multiflora Rmu_sc0000039.1_g000008 Rmu_sc0000637.1_g000006 Rmu_sc0007000.1_g000002 Rmu_sc0009339.1_g000009 Rmu_sc0027757.1_g000001 Rmu_sc0042097.1_g000001
rosa_roxburghii Rroxscaffold_1G00009880 Rroxscaffold_1G00069840 Rroxscaffold_1G00069850 Rroxscaffold_2G00088370 Rroxscaffold_2G00088630 Rroxscaffold_2G00088650 Rroxscaffold_2G00088660 Rroxscaffold_2G00088670 Rroxscaffold_2G00088680 Rroxscaffold_2G00088710 Rroxscaffold_3G00226660 Rroxscaffold_3G00226670 Rroxscaffold_3G00258720
rosa_rugosa Rorug02G0490500 Rorug02G0490600 Rorug02G0491600 Rorug02G0491800 Rorug02G0491800 Rorug02G0494100 Rorug05G0410900 Rorug07G0037000 Rorug07G0286000
rosa_samantha Rh2AG157300 Rh2AG556800 Rh2AG557500 Rh2AG557800 Rh2AG560100 Rh2BG163600 Rh2BG391200 Rh2BG570100 Rh2BG570600 Rh2BG571000 Rh2BG571100 Rh2BG571400 Rh2CG540600 Rh2CG541100 Rh2CG541400 Rh2CG541500 Rh2CG543700 Rh2DG162500 Rh2DG580000 Rh2DG580200 Rh2DG580300 Rh5AG047700 Rh5AG047800 Rh5BG046400 Rh5BG485500 Rh5CG055100 Rh5CG055200 Rh5CG510000 Rh5DG046200 Rh5DG496700 Rh7AG440700 Rh7AG468400 Rh7BG164100 Rh7BG413500 Rh7BG413600 Rh7CG170200 Rh7CG462400 Rh7CG462500 Rh7DG331400 Rh7DG430400
rosa_wichuraiana Rw2G046080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 40
AciI CCGC 1 cut(s) 219
AfaI GTAC 2 cut(s) 27, 319
AfiI CCNNNNNNNGG 1 cut(s) 327
AgsI TTSAA 1 cut(s) 241
AluBI AGCT 1 cut(s) 294
AluI AGCT 1 cut(s) 294
Alw26I GTCTC 1 cut(s) 36
ApeKI GCWGC 1 cut(s) 111
AsuHPI GGTGA 2 cut(s) 131, 221
BbvI GCAGC 1 cut(s) 123
BccI CCATC 1 cut(s) 321
BceAI ACGGC 1 cut(s) 158
BcgI CGANNNNNNTGC 2 cut(s) 315, 349
BclI TGATCA 1 cut(s) 345
BcoDI GTCTC 1 cut(s) 36
BfuAI ACCTGC 1 cut(s) 40
BisI GCNGC 1 cut(s) 112
BlsI GCNGC 1 cut(s) 113
Bsa29I ATCGAT 1 cut(s) 325
Bsc4I CCNNNNNNNGG 1 cut(s) 327
Bse118I RCCGGY 1 cut(s) 206
Bse3DI GCAATG 1 cut(s) 99
BseCI ATCGAT 1 cut(s) 325
BseLI CCNNNNNNNGG 1 cut(s) 327
BseMI GCAATG 1 cut(s) 99
BseXI GCAGC 1 cut(s) 123
BsgI GTGCAG 1 cut(s) 219
Bsh1285I CGRYCG 1 cut(s) 325
BshVI ATCGAT 1 cut(s) 325
BsiEI CGRYCG 1 cut(s) 325
BsiSI CCGG 1 cut(s) 207
BslFI GGGAC 2 cut(s) 147, 344
BslI CCNNNNNNNGG 1 cut(s) 327
BsmAI GTCTC 1 cut(s) 36
BsmFI GGGAC 2 cut(s) 147, 344
Bsp143I GATC 2 cut(s) 322, 345
BspACI CCGC 1 cut(s) 219
BspDI ATCGAT 1 cut(s) 325
BspHI TCATGA 1 cut(s) 371
BspMI ACCTGC 1 cut(s) 40
BsrDI GCAATG 1 cut(s) 99
BsrFI RCCGGY 1 cut(s) 206
BssAI RCCGGY 1 cut(s) 206
BssMI GATC 2 cut(s) 322, 345
Bst4CI ACNGT 1 cut(s) 30
BstC8I GCNNGC 1 cut(s) 78
BstKTI GATC 2 cut(s) 325, 348
BstMAI GTCTC 1 cut(s) 36
BstMBI GATC 2 cut(s) 322, 345
BstMCI CGRYCG 1 cut(s) 325
BstMWI GCNNNNNNNGC 1 cut(s) 108
BstNSI RCATGY 2 cut(s) 49, 80
BstV1I GCAGC 1 cut(s) 123
Bsu15I ATCGAT 1 cut(s) 325
BsuTUI ATCGAT 1 cut(s) 325
BtsI GCAGTG 1 cut(s) 121
BtsIMutI CAGTG 1 cut(s) 121
BveI ACCTGC 1 cut(s) 40
Cac8I GCNNGC 1 cut(s) 78
CciI TCATGA 1 cut(s) 371
Cfr10I RCCGGY 1 cut(s) 206
ClaI ATCGAT 1 cut(s) 325
Csp6I GTAC 2 cut(s) 26, 318
CviAII CATG 3 cut(s) 46, 77, 372
CviJI RGCY 4 cut(s) 173, 206, 294, 313
CviKI_1 RGCY 4 cut(s) 173, 206, 294, 313
CviQI GTAC 2 cut(s) 26, 318
DpnI GATC 2 cut(s) 324, 347
DpnII GATC 2 cut(s) 322, 345
FaeI CATG 3 cut(s) 49, 80, 375
FaiI YATR 5 cut(s) 47, 78, 85, 195, 373
FalI AAGNNNNNCTT 2 cut(s) 65, 97
FaqI GGGAC 2 cut(s) 147, 344
FatI CATG 3 cut(s) 45, 76, 371
FbaI TGATCA 1 cut(s) 345
Fnu4HI GCNGC 1 cut(s) 112
Fsp4HI GCNGC 1 cut(s) 112
GluI GCNGC 1 cut(s) 112
HapII CCGG 1 cut(s) 207
Hin1II CATG 3 cut(s) 49, 80, 375
HinfI GANTC 1 cut(s) 247
HpaII CCGG 1 cut(s) 207
HphI GGTGA 2 cut(s) 131, 221
Hpy188III TCNNGA 1 cut(s) 372
HpyAV CCTTC 1 cut(s) 268
HpyCH4III ACNGT 1 cut(s) 30
HpyCH4V TGCA 8 cut(s) 49, 97, 183, 200, 288, 336, 355, 362
HpyF10VI GCNNNNNNNGC 1 cut(s) 108
Hsp92II CATG 3 cut(s) 49, 80, 375
Ksp22I TGATCA 1 cut(s) 345
Kzo9I GATC 2 cut(s) 322, 345
LpnPI CCDG 2 cut(s) 35, 220
Lsp1109I GCAGC 1 cut(s) 123
MaeIII GTNAC 1 cut(s) 13
MalI GATC 2 cut(s) 324, 347
MboI GATC 2 cut(s) 322, 345
MluCI AATT 2 cut(s) 184, 242
MlyI GAGTC 1 cut(s) 241
MnlI CCTC 1 cut(s) 52
MseI TTAA 1 cut(s) 264
MslI CAYNNNNRTG 2 cut(s) 44, 370
MspI CCGG 1 cut(s) 207
MwoI GCNNNNNNNGC 1 cut(s) 108
NdeII GATC 2 cut(s) 322, 345
NlaIII CATG 3 cut(s) 49, 80, 375
NspI RCATGY 2 cut(s) 49, 80
PaeI GCATGC 1 cut(s) 80
PagI TCATGA 1 cut(s) 371
PkrI GCNGC 1 cut(s) 113
Ple19I CGATCG 1 cut(s) 325
PleI GAGTC 1 cut(s) 241
PpsI GAGTC 1 cut(s) 241
PvuI CGATCG 1 cut(s) 325
RsaI GTAC 2 cut(s) 27, 319
RsaNI GTAC 2 cut(s) 26, 318
RseI CAYNNNNRTG 2 cut(s) 44, 370
SaqAI TTAA 1 cut(s) 264
SatI GCNGC 1 cut(s) 112
Sau3AI GATC 2 cut(s) 322, 345
SchI GAGTC 1 cut(s) 241
SetI ASST 2 cut(s) 54, 296
SmiMI CAYNNNNRTG 2 cut(s) 44, 370
SphI GCATGC 1 cut(s) 80
Sse9I AATT 2 cut(s) 184, 242
SsiI CCGC 1 cut(s) 219
TaaI ACNGT 1 cut(s) 30
TaqI TCGA 2 cut(s) 42, 325
TasI AATT 2 cut(s) 184, 242
TatI WGTACW 1 cut(s) 25
Tru1I TTAA 1 cut(s) 264
Tru9I TTAA 1 cut(s) 264
TscAI CASTG 1 cut(s) 121
TseI GCWGC 1 cut(s) 111
TspDTI ATGAA 2 cut(s) 83, 360
TspGWI ACGGA 1 cut(s) 178
TspRI CASTG 1 cut(s) 121
XceI RCATGY 2 cut(s) 49, 80
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.